| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 4,327,926 | C→A | 16.1% | intergenic (‑180/+145) | adiY ← / ← adiA | adi system transcriptional activator/arginine decarboxylase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 4,327,926 | 0 | C | A | 16.1% | 73.0 / 3.4 | 36 | intergenic (‑180/+145) | adiY/adiA | adi system transcriptional activator/arginine decarboxylase |
| Reads supporting (aligned to +/- strand): ref base C (18/11); new base A (2/4); total (20/16) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.67e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
TTCTCGCTAAAGCAAAGCGATACCGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACGCCTTCAGCGGAATAGT > CP009273/4327779‑4328068 | ttCTCGCTAAAGCAAAGCGATACCGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑a > 2:578632/1‑149 (MQ=255) aagcGATACCGGGAAATGGGTATATAATTGTATTATGAATATAAACATGAATAAAAATAACGAGTTATACTAATAGTACAAATTTTTAAAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAAAA‑AAAAAAAAg < 1:349655/143‑1 (MQ=255) cGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTg > 1:82560/1‑143 (MQ=255) cGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCcg > 2:565173/1‑149 (MQ=255) ataATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGa > 2:71062/1‑149 (MQ=255) ttGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTTCTGTTTAAATAAAAAGA‑AAAAGAAAGCGCGGGGTGGGGCCGCGCAAAAAGTAt > 1:249258/1‑143 (MQ=255) gaatgatgAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTAAATATTTTTTCAATGTAACCCTCCTCTGT‑GAAAAAAAGCGCGGGGTGGGGCTGCGCAAAAAGTATGACAtttt < 2:151169/147‑1 (MQ=255) tgatgaATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAACAGTATGACATTtttgt > 2:271768/1‑149 (MQ=255) tgatgaATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTtttgt > 2:248707/1‑149 (MQ=255) gatgaATATAAACATGCATAAAAATAACGGGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAGAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTtttggt > 2:154449/1‑147 (MQ=255) gatgaATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATATCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAACGCGCGGGGTGGGGCCGCGCAAAAAGTATGACAtt > 1:57400/1‑143 (MQ=255) ataaAAACAAGCATAAAAAAAACGAGTTTTACTAATAGAACAATTATTTATATGATTTTCACTTTAACATATTTTTTAACAGAAAAAAAAACAAAA‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTgcag < 2:243732/149‑1 (MQ=255) tataAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTTCAGGTTAAATAACAGGC‑AAAAAAAAGCGCGGGGTGAGGCCGCGCAAAAAGTATGACATTtttgtt > 1:20016/1‑143 (MQ=255) caggCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAAtttt < 2:504686/146‑1 (MQ=255) aaaaTAACGAGGTTTACTAATAGTACAAAGTTTTATAGTAATTTCTCATGTAGATATTTTTTTACAGGATAAATAAAAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTa < 1:56416/143‑1 (MQ=255) aaTAACGAGTTTTACTAATAGGACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACg < 2:235278/149‑1 (MQ=255) aaaCGAGTTTTACAAATAGAACAAACTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGtt < 2:360329/148‑1 (MQ=255) aCGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGc > 2:393534/1‑149 (MQ=255) aTAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTTTTTTTTTTTTAACAGGA‑AAAAAAAAGCGCGGGTTGGGGGCGCGAAAAAAGTATGACATTTTTGTTTTCAGCATTTTTTTTGAAAAAGTTTCCAtgttt > 1:17860/1‑139 (MQ=255) aTAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCCAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGCAAACTTTGCCATACTCAAAAgg > 2:45860/1‑149 (MQ=255) tgataaaTTTTTATAGGAAGTGCTCGGGTACATATTTTTTTACAGGATAAATAACAGGA‑AAAAAAAAGCGCTGGGGGGGGCCGCGCAAAAAGTATTACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCaaa < 1:137879/139‑1 (MQ=255) cAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAgg > 1:471347/1‑143 (MQ=255) aTTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGGCTAAGGcc > 2:169220/1‑149 (MQ=255) tAATTTCTCATGTACATATTTTTTTACTGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATCCTCAAAAGCCCTAAGGCCAggc > 1:84794/1‑143 (MQ=255) tAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAggc > 1:514246/1‑143 (MQ=255) tttCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATg < 2:602730/149‑1 (MQ=255) tgtctcAGTTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATg < 2:79537/147‑1 (MQ=255) catgaactaacttttttACAGGATAAAAAACAGCA‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGCATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTAtt < 2:77299/138‑1 (MQ=255) cATGTACATATTTTTTTACAGAATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTAtt < 2:462549/149‑1 (MQ=255) tACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTaaa < 2:362446/149‑1 (MQ=255) tACATATTGTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTa < 1:277119/143‑1 (MQ=255) cATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTAtt < 1:220100/143‑1 (MQ=255) atatTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCGGGCTGCGTAATGTTGttt > 1:234914/1‑143 (MQ=255) aGGATAAATAACAGGCAAAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGGATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACg > 1:101557/1‑143 (MQ=255) aGGATAAATAACAGGC‑AAAAAAAAGCGCGGCGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCCAAGGGCATAAGGCCAAGCGGCGTAATGTTATTGAAACAATTAGGc > 1:392067/1‑143 (MQ=255) aaCAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACGCCTTCAGCGGAATAGt < 2:92369/149‑1 (MQ=255) c‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGGATGACATTGTTGTTTGCAGCAATTTTTATGAAACCGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACGCCTTCAGCGGAATAGt < 1:138693/143‑1 (MQ=255) | TTCTCGCTAAAGCAAAGCGATACCGGGAAATGGTTATATAATTGTATGATGAATATAAACATGCATAAAAATAACGAGTTTTACTAATAGTACAAATTTTTATAGTAATTTCTCATGTACATATTTTTTTACAGGATAAATAACAGGC‑AAAAAAAAGCGCGGGGTGGGGCCGCGCAAAAAGTATGACATTTTTGTTTGCAGCAATTTTTATGAAAACGTTGCCATACTCAAAAGGCCTAAGGCCAGGCGGCGTAATGTTATTTAAACAATTACGCCTTCAGCGGAATAGT > CP009273/4327779‑4328068 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |